Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 175 of 276
Found at i:57547761 original size:53 final size:54
Alignment explanation
Indices: 57547657--57547766 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 54
57547647 TGCAGGAAGC
* * *
57547657 GTTCTGGTGGCTATGTCACAAATATCTGTTTCTGGTGTTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGCTATGCCACAAATATCT
* * *
57547711 GTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTG-CTATGCCACAAATATCT
57547764 GTT
1 GTT
57547767 GACTGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
53 26 0.53
54 23 0.47
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGCTATGCCACAAATATCT
Found at i:57548100 original size:27 final size:27
Alignment explanation
Indices: 57548070--57548126 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
57548060 ATTCTGTTAA
* **
57548070 GTGGCTTTGCCACGTTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
57548097 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
57548124 GTG
1 GTG
57548127 ACTTCGTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:57548298 original size:6 final size:6
Alignment explanation
Indices: 57548261--57548354 Score: 66
Period size: 6 Copynumber: 15.3 Consensus size: 6
57548251 TTGCATTCAC
* * * *
57548261 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
57548310 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
57548355 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
5 3 0.04
6 56 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:57548308 original size:31 final size:31
Alignment explanation
Indices: 57548273--57548333 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
57548263 TCTAATTTTG
*
57548273 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATACTGATTCTGATTCTA
*
57548304 ATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGTCACCTGATACTGATTCTGATTCT
57548334 CATTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:57552875 original size:27 final size:27
Alignment explanation
Indices: 57552845--57553894 Score: 1420
Period size: 27 Copynumber: 39.2 Consensus size: 27
57552835 ATCAGGAAAG
*
57552845 TTACCGAAATACCCCTGTAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57552872 TTACCGAAATACCCCTGTATGGTAAAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57552899 TTACCGAAATACTCCTGTAGCGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57552926 TTACCGAAATACCCCTGTAGGGTAG-A
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57552952 TTATCGAAATA-CCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** *
57552978 TTATTGAAATACCCCAGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553005 TTACCGAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553032 TTACCGAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57553059 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553086 TTACCGAAATAGCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553113 TTACCGAAAT-CCGCTTGTAGGGTAGAA
1 TTACCGAAATACC-CCTGTAGGGTAGAA
* * *
57553140 TTACCAAAATA-CCCTATAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57553166 TTACTGAAATACCCATGTAGGGTAAAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57553193 TTATCGAAATACCCCTGTAGGGAAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57553220 TTATCG-AA-ACCCCTGTAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57553245 TTACCAAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57553272 TTACTAAAATA--CCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57553297 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57553324 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553351 TTACCGAAAT-CCGCTTGTAGGGTAGAA
1 TTACCGAAATACC-CCTGTAGGGTAGAA
*
57553378 TTACCAAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553405 TTTCCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57553432 TTACCAAAATACCCCTGTAGGGTTGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553459 TTACCGAGATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553486 TTATCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553513 TTATCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553540 TTACCGAAATACCCATGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553567 TTACCGAAATATCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * * *
57553594 TTACTAAAATACCCTTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57553621 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553648 TTACCGAAATACCCCAGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553675 TTACCGAAATACCCCTGTACGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57553702 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553729 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57553756 TTA-CAAAATACGCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
**
57553782 TTACCGAAATACCTTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * * *
57553809 TTGCTGAAATACCCTTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57553836 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57553863 TTACC-AAGATACCCTTGTGGGGTAAAA
1 TTACCGAA-ATACCCCTGTAGGGTAGAA
57553890 TTACC
1 TTACC
57553895 ATTTTGCCCC
Statistics
Matches: 904, Mismatches: 106, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
25 54 0.06
26 73 0.08
27 775 0.86
28 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCCTGTAGGGTAGAA
Found at i:57554164 original size:27 final size:28
Alignment explanation
Indices: 57554119--57554227 Score: 127
Period size: 27 Copynumber: 4.0 Consensus size: 28
57554109 GGAGGAAGCG
*
57554119 TTCTGGTGGCTATGTCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
57554147 TTCTGGT-GTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
57554173 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * * *
57554200 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
57554227 T
1 T
57554228 GACTGATCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 49 0.69
28 7 0.10
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:57554222 original size:53 final size:54
Alignment explanation
Indices: 57554118--57554227 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 54
57554108 TGGAGGAAGC
* * *
57554118 GTTCTGGTGGCTATGTCACAAATATCTGTTTCTGGTGTTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGCTATGCCACAAATATCT
* * *
57554172 GTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTG-CTATGCCACAAATATCT
57554225 GTT
1 GTT
57554228 GACTGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
53 26 0.53
54 23 0.47
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGCTATGCCACAAATATCT
Found at i:57554759 original size:6 final size:6
Alignment explanation
Indices: 57554744--57554815 Score: 65
Period size: 6 Copynumber: 11.8 Consensus size: 6
57554734 ATTCTGTTAC
* * *
57554744 CTGATA CTGATT CTGATT CTAATT CTG-TCAC CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
* * *
57554793 CTCATT TTGATT CTAATT CTGAT
1 CTGATT CTGATT CTGATT CTGAT
57554816 ATTGTTTCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
5 1 0.02
6 47 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:57554769 original size:31 final size:31
Alignment explanation
Indices: 57554734--57554794 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
57554724 TCTAATTTTT
*
57554734 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATACTGATTCTGATTCTA
*
57554765 ATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGTCACCTGATACTGATTCTGATTCT
57554795 CATTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:57558421 original size:40 final size:40
Alignment explanation
Indices: 57558370--57558875 Score: 888
Period size: 40 Copynumber: 12.6 Consensus size: 40
57558360 CATTTGAATG
*
57558370 ATATCCGGGCTAAGACCCGAAGGCATTTGTGAGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
57558410 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558450 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558490 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558530 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
57558570 ATATCCGGGCTAAGACCCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAATTGAT
*
57558611 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558651 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558691 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558731 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
57558771 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
57558811 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
57558851 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
57558876 ATTGAGCTTG
Statistics
Matches: 446, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 404 0.91
41 40 0.09
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:57560654 original size:27 final size:27
Alignment explanation
Indices: 57560616--57562016 Score: 2100
Period size: 27 Copynumber: 52.0 Consensus size: 27
57560606 CTCATATCTG
57560616 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560643 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560670 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560697 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560724 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560751 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560778 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560805 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560832 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560859 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560886 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560913 AG-ATTACCGAAATA-CCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
57560938 AGAATTACTGAAATACCCCAGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * *
57560965 AGAATTACAGAAATACCACTGTAGGAT
1 AGAATTACCGAAATACCCCTGTAGGGT
57560992 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57561019 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * * *
57561046 AGAATTATCGAAATA-CCCTATCGGAT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
57561072 AGAATTACTGAAATACCCATTGTAGGGT
1 AGAATTACCGAAATACCC-CTGTAGGGT
* *
57561100 AGAATTATCGAAATACCCCTGTAGGGA
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
57561127 AGAGTTACCG-AATACCCCTGTAAGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561153 AGAATTACCAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* ** * *
57561180 AGAATTTCTAAAATACCCCTATATGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561207 AGAATTATCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561234 AGAATTACCAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
** * * *
57561261 AGAATTACTAAAATACCCATATATGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561288 AGAATTACCGAAATACCCTTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561315 AGAATTACCGAAATACCTCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561342 AGAATTTCCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57561369 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* ** * *
57561396 AGGATTACTAAAATACCCCTATATGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57561423 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* ** *
57561450 AGAATTTCTAAAATACCCTTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57561477 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561504 AGAATTACTGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
57561531 AGAATTACCGAAATACCCCTATATGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57561558 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* **
57561585 AGAATTACCAAAATACCCCAATAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561612 AGAATTACCGAAATACCCCTGTACGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
** * *
57561639 AGAATTACTAAAATACCCCTATATGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561666 AGAATTACCGAAATACCCTTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
57561693 AGAATTA-CGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561719 AGAATTACCGAAATATCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
57561746 AGAATTACTGAAATACCCCTATAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
57561773 AGAATTACTGAAATACCCTTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
**
57561800 AGAATTACTAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561827 AGAATTACC-AAGATACCCTTGTAGGGT
1 AGAATTACCGAA-ATACCCCTGTAGGGT
*
57561854 AGAATTACCAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561881 AGAATTACCGAAAT-CCGCTTGTAGGGT
1 AGAATTACCGAAATACC-CCTGTAGGGT
*
57561908 AGAATTACCAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561935 AGAATTACCGAAAT-CCGCTTGTAGGGT
1 AGAATTACCGAAATACC-CCTGTAGGGT
*
57561962 AGAATTACCAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
57561989 AGAATTACCGAAAT-CCGCTTGTAGGGT
1 AGAATTACCGAAATACC-CCTGTAGGGT
57562016 A
1 A
57562017 TTAGGGTGTT
Statistics
Matches: 1243, Mismatches: 118, Indels: 26
0.90 0.09 0.02
Matches are distributed among these distances:
25 13 0.01
26 99 0.08
27 1104 0.89
28 27 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AGAATTACCGAAATACCCCTGTAGGGT
Found at i:57562279 original size:27 final size:27
Alignment explanation
Indices: 57562232--57562320 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
57562222 GGAGGAAGCA
* *
57562232 TTCTGGTGGCTATGTCGCAAATATCTGT
1 TTCTGGT-GCTATGCCACAAATATCTGT
*
57562260 TTCTGGTGTTATGCCACAAATATCTG-
1 TTCTGGTGCTATGCCACAAATATCTGT
*
57562286 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGT-GCTATGCCACAAATATCTGT
*
57562313 ATCTGGTG
1 TTCTGGTG
57562321 ACTCTATCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.30
27 30 0.57
28 7 0.13
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (27 bp):
TTCTGGTGCTATGCCACAAATATCTGT
Found at i:57562325 original size:27 final size:25
Alignment explanation
Indices: 57562251--57562340 Score: 99
Period size: 27 Copynumber: 3.4 Consensus size: 25
57562241 CTATGTCGCA
* *
57562251 AATATCTGTTTCTGGTGTTATGCCAC
1 AATATCTG-TTCTGGTGCTCTGCCAC
57562277 AAATATCTGTTCTGGTGGCTCTGCCAC
1 -AATATCTGTTCTGGT-GCTCTGCCAC
**
57562304 AATATCTGTATCTGGTGACTCTATCAC
1 AATATCTGT-TCTGGTG-CTCTGCCAC
57562331 AATATCTGTT
1 AATATCTGTT
57562341 GACTGATCGA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
26 18 0.32
27 38 0.68
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (25 bp):
AATATCTGTTCTGGTGCTCTGCCAC
Found at i:57562332 original size:54 final size:52
Alignment explanation
Indices: 57562232--57562340 Score: 125
Period size: 53 Copynumber: 2.0 Consensus size: 52
57562222 GGAGGAAGCA
*
57562232 TTCTGGTGGCTATGTCGCAAATATCTGTTTCTGGTGTTATGCCACAAATATCTG
1 TTCTGGTGGCTATGTCGCAAATATCTGTATCTGGTGTTAT-CCAC-AATATCTG
*
57562286 TTCTGGTGGCTCTG-C-CACAATATCTGTATCTGGTGACTCTAT-CACAATATCTG
1 TTCTGGTGGCTATGTCGCA-AATATCTGTATCTGGTG--T-TATCCACAATATCTG
57562339 TT
1 TT
57562341 GACTGATCGA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
52 2 0.04
53 27 0.55
54 16 0.33
55 1 0.02
56 3 0.06
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (52 bp):
TTCTGGTGGCTATGTCGCAAATATCTGTATCTGGTGTTATCCACAATATCTG
Found at i:57562674 original size:27 final size:27
Alignment explanation
Indices: 57562644--57562700 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
57562634 ATTCTGTTAA
* **
57562644 GTGGCTTTGCCACGTTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
57562671 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
57562698 GTG
1 GTG
57562701 ACTTCGTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:57562872 original size:6 final size:6
Alignment explanation
Indices: 57562835--57562928 Score: 66
Period size: 6 Copynumber: 15.3 Consensus size: 6
57562825 TTGCATTCAC
* * * *
57562835 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
57562884 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
57562929 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
5 3 0.04
6 56 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:57562882 original size:31 final size:31
Alignment explanation
Indices: 57562847--57562907 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
57562837 TCTAATTTTG
*
57562847 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATACTGATTCTGATTCTA
*
57562878 ATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGTCACCTGATACTGATTCTGATTCT
57562908 CATTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:57562937 original size:18 final size:17
Alignment explanation
Indices: 57562916--57562949 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57562906 CTCATTTTGA
57562916 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
57562934 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
57562950 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:57563319 original size:201 final size:201
Alignment explanation
Indices: 57562974--57563370 Score: 785
Period size: 201 Copynumber: 2.0 Consensus size: 201
57562964 TGGTACTGTC
57562974 TGTTATAGTGGGCTAAAGCCCAACTGGTACTGAAACTATAAGTAGGGCTGGGGCCAGACTTTTAA
1 TGTTATAGTGGGCTAAAGCCCAACTGGTACTGAAACTATAAGTAGGGCTGGGGCCAGACTTTTAA
57563039 TTTTTTTATATTACTGACTGTTCCTTTTTATAGTAGGGTATTTCACACTGAGTTTTCGTAAACTC
66 TTTTTTTATATTACTGACTGTTCCTTTTTATAGTAGGGTATTTCACACTGAGTTTTCGTAAACTC
57563104 ACCCTGTTTATTAACATTTCAGGTAATTTCCAGCCTTAGATGGATTGGAGCTGCGAAGGGCTCGG
131 ACCCTGTTTATTAACATTTCAGGTAATTTCCAGCCTTAGATGGATTGGAGCTGCGAAGGGCTCGG
57563169 ATTGTT
196 ATTGTT
*
57563175 TGTTATAGTGGGCTAAAGCCCAACTGGTACTGAAACTGTAAGTAGGGCTGGGGCCAGACTTTTAA
1 TGTTATAGTGGGCTAAAGCCCAACTGGTACTGAAACTATAAGTAGGGCTGGGGCCAGACTTTTAA
57563240 TTTTTTTATATTACTGACTGTTCCTTTTTATAGTAGGGTATTTCACACTGAGTTTTCGTAAACTC
66 TTTTTTTATATTACTGACTGTTCCTTTTTATAGTAGGGTATTTCACACTGAGTTTTCGTAAACTC
57563305 ACCCTGTTTATTAACATTTCAGGTAATTTCCAGCCTTAGATGGATTGGAGCTGCGAAGGGCTCGG
131 ACCCTGTTTATTAACATTTCAGGTAATTTCCAGCCTTAGATGGATTGGAGCTGCGAAGGGCTCGG
57563370 A
196 A
57563371 GGAAGCCACA
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 195 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (201 bp):
TGTTATAGTGGGCTAAAGCCCAACTGGTACTGAAACTATAAGTAGGGCTGGGGCCAGACTTTTAA
TTTTTTTATATTACTGACTGTTCCTTTTTATAGTAGGGTATTTCACACTGAGTTTTCGTAAACTC
ACCCTGTTTATTAACATTTCAGGTAATTTCCAGCCTTAGATGGATTGGAGCTGCGAAGGGCTCGG
ATTGTT
Found at i:57571396 original size:40 final size:40
Alignment explanation
Indices: 57571325--57571477 Score: 238
Period size: 40 Copynumber: 3.9 Consensus size: 40
57571315 TATTTAGCAC
* * *
57571325 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
57571364 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
57571404 AGCCTGCGGGCCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
57571444 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
57571478 CATCAAATAA
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.15
40 89 0.85
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:57579531 original size:29 final size:29
Alignment explanation
Indices: 57579489--57579552 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
57579479 ACTAATAGAT
57579489 ACCTTTAACAACTAGCATTCCACTTTTGC
1 ACCTTTAACAACTAGCATTCCACTTTTGC
57579518 ACCTTTAACAACTAGCATTCCACTTTTGC
1 ACCTTTAACAACTAGCATTCCACTTTTGC
57579547 ACCTTT
1 ACCTTT
57579553 TGCGATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.27, C:0.31, G:0.06, T:0.36
Consensus pattern (29 bp):
ACCTTTAACAACTAGCATTCCACTTTTGC
Found at i:57579796 original size:45 final size:45
Alignment explanation
Indices: 57579747--57579863 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 45
57579737 GGTATAGTGC
* * *
57579747 CATAGTGTCTTTCAGCTATGTTCTTACACATTTGAATCGTGATGT
1 CATAGTGTCTTTCAGCTATGGTCTTACACATTTGAATCATGATGG
* * * * * *
57579792 CATAGTGCCTTTCAGGTTTGGTCTTGCTCATTTGATTCATGATGG
1 CATAGTGTCTTTCAGCTATGGTCTTACACATTTGAATCATGATGG
** *
57579837 CATAGCATTTTTCAGCTATGGTCTTAC
1 CATAGTGTCTTTCAGCTATGGTCTTAC
57579864 TCGTATTTCA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (45 bp):
CATAGTGTCTTTCAGCTATGGTCTTACACATTTGAATCATGATGG
Found at i:57582072 original size:37 final size:37
Alignment explanation
Indices: 57582022--57582100 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57582012 TTATTACGAA
* * *
57582022 GTCTTACCCGGACATAATCTCCACACAAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACAAAGTCATCGG
**
57582059 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACAAAGTCATCGG
57582096 GTCTT
1 GTCTT
57582101 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACAAAGTCATCGG
Found at i:57582297 original size:47 final size:47
Alignment explanation
Indices: 57582219--57583146 Score: 1696
Period size: 47 Copynumber: 19.7 Consensus size: 47
57582209 CCCTTCGGGA
* * * * * * *
57582219 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
* *
57582266 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
57582313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
57582360 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
**
57582407 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
57582454 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582501 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582548 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582595 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582642 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582689 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582736 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582783 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582830 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582877 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582924 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57582971 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
57583018 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
57583065 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
57583112 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
57583147 AGAATCCTAA
Statistics
Matches: 863, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
46 1 0.00
47 862 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
Found at i:57599917 original size:43 final size:43
Alignment explanation
Indices: 57599757--57599928 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
57599747 CATAGGATTC
* *
57599757 CGATATGTGATTTCATGTAAGACCACATCTGGGACATTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTGGGACATTGGCAT
* * * ** * *
57599800 TGAT-TTGAGATTTACGTGTAAGACCATGTCTTGGACATTAGCAT
1 CGATATT-TGA-TTACATGTAAGACCACATCTGGGACATTGGCAT
* * * *
57599844 C-ATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATTTGATTACATGTAAGACCAC-ATCTGGGACATTGGCAT
**
57599886 CGATATTTGATTACATGTAAGACCACATCTGGGATGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTGGGACATTGGCAT
57599929 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.29
43 42 0.42
44 30 0.30
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACATCTGGGACATTGGCAT
Found at i:57603684 original size:28 final size:27
Alignment explanation
Indices: 57603621--57603772 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
57603611 ATATTAAGTC
* * *
57603621 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
57603648 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
57603676 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
57603703 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
57603731 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
57603758 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57603773 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:57603705 original size:55 final size:55
Alignment explanation
Indices: 57603621--57603772 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
57603611 ATATTAAGTC
* * *
57603621 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
57603676 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
57603731 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
57603773 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:57608343 original size:43 final size:42
Alignment explanation
Indices: 57608188--57608344 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
57608178 TCTATTATTG
* * * *
57608188 TGTAAGACCACATCTGGGACGTTGACATCGACTTTTGTTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTTTG-ATTATA
* * * * * *
57608232 TGTAAGACCATGTTTGGGACATCGGCATC-ATATCTGATT-TCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTTGATTAT-A
* *
57608274 TGTAAGACC-CTGTTTGGGATAG-TGGCATCGATGTTTGATTATA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TTTGATTATA
57608317 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
57608345 TGTATATGCT
Statistics
Matches: 86, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
42 27 0.31
43 34 0.40
44 25 0.29
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTTGATTATA
Found at i:57611445 original size:25 final size:26
Alignment explanation
Indices: 57611417--57611484 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
57611407 TTATGAGCGG
57611417 CCCGA-TATATGGCTCTTT-GGAGCTT
1 CCCGATTA-ATGGCTCTTTAGGAGCTT
* *
57611442 CCCGATTAAAGGCTCTTTCATGAGCTT
1 CCCGATTAATGGCTCTTT-AGGAGCTT
57611469 CCCGATTAATGGCTCT
1 CCCGATTAATGGCTCT
57611485 CCAGAACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 14 0.38
26 2 0.05
27 21 0.57
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
CCCGATTAATGGCTCTTTAGGAGCTT
Found at i:57611542 original size:24 final size:24
Alignment explanation
Indices: 57611498--57611545 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57611488 GAACTTTTCT
*
57611498 ATATTGGCTCGCTTGAACTTCCCA
1 ATATTGGCTAGCTTGAACTTCCCA
*
57611522 ATATTGGCTAG-TATGAGCTTCCCA
1 ATATTGGCTAGCT-TGAACTTCCCA
57611546 TTAATTGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (24 bp):
ATATTGGCTAGCTTGAACTTCCCA
Found at i:57617967 original size:18 final size:19
Alignment explanation
Indices: 57617916--57617969 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
57617906 TTATGTAAAA
57617916 AAAATATAAA-ATTATCAT
1 AAAATATAAATATTATCAT
*
57617934 AAAGATAAATAATATTATCAT
1 AAA-ATATA-AATATTATCAT
57617955 -AAATATAAATATTAT
1 AAAATATAAATATTAT
57617970 TCAATTAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 11 0.35
19 8 0.26
20 4 0.13
21 8 0.26
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATATAAATATTATCAT
Found at i:57617970 original size:21 final size:21
Alignment explanation
Indices: 57617921--57617970 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
57617911 TAAAAAAAAT
*
57617921 ATAAAATTATCATAAAGATAA
1 ATAATATTATCATAAAGATAA
*
57617942 ATAATATTATCATAAATATAA
1 ATAATATTATCATAAAGATAA
*
57617963 ATATTATT
1 ATAATATT
57617971 CAATTAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAATATTATCATAAAGATAA
Found at i:57622509 original size:64 final size:64
Alignment explanation
Indices: 57622396--57622522 Score: 148
Period size: 64 Copynumber: 2.0 Consensus size: 64
57622386 CTAGCCAATT
* * * * * * *
57622396 TATCTCGTAGCTCTCTTGTCCATATGGTGTCCACCTGGAGCCACGCATGCGACCTAGCTACATA
1 TATCCCGTAGCTCTCTGGTCCATATGGTGTACACATGGAGCCACCCATGCAACCTAACTACATA
* * *
57622460 TATCCCGTAGCTCTCTGGTCTATATGGTGTACACATAGTA-TCACCCATGCAACCTAACTACAT
1 TATCCCGTAGCTCTCTGGTCCATATGGTGTACACAT-GGAGCCACCCATGCAACCTAACTACAT
57622523 CATAATGTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 50 0.96
65 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
TATCCCGTAGCTCTCTGGTCCATATGGTGTACACATGGAGCCACCCATGCAACCTAACTACATA
Found at i:57623293 original size:30 final size:30
Alignment explanation
Indices: 57623257--57623317 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
57623247 TCCTTAACTC
57623257 AAAC-TTTGAAAAATTTACAATTTTGCCCCT
1 AAACTTTTG-AAAATTTACAATTTTGCCCCT
* * *
57623287 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAATTTACAATTTTGCCCCT
57623317 A
1 A
57623318 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAATTTACAATTTTGCCCCT
Found at i:57637148 original size:23 final size:23
Alignment explanation
Indices: 57637121--57637178 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
57637111 ACGTTTACCG
*
57637121 CTATTAGAAGCTTTGCTGTATTA
1 CTATTAGAAGCTTTGCTGCATTA
* *
57637144 CTATTAGTAGCTTTGCTGCGTTA
1 CTATTAGAAGCTTTGCTGCATTA
*
57637167 CTATTAGCAGCT
1 CTATTAGAAGCT
57637179 ACGCTGCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (23 bp):
CTATTAGAAGCTTTGCTGCATTA
Found at i:57637184 original size:23 final size:23
Alignment explanation
Indices: 57637141--57637185 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
57637131 CTTTGCTGTA
* **
57637141 TTACTATTAGTAGCTTTGCTGCG
1 TTACTATTAGCAGCTACGCTGCG
57637164 TTACTATTAGCAGCTACGCTGC
1 TTACTATTAGCAGCTACGCTGC
57637186 AATATTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (23 bp):
TTACTATTAGCAGCTACGCTGCG
Found at i:57640714 original size:26 final size:25
Alignment explanation
Indices: 57640641--57640758 Score: 132
Period size: 25 Copynumber: 4.7 Consensus size: 25
57640631 GACAAACCGT
* *
57640641 AGCTCGT-ACGAGCTTACCGGTTTAC
1 AGCTCGTGA-GAGCATACCGATTTAC
57640666 AGCTCGTGAGAGCATACCGATTTAC
1 AGCTCGTGAGAGCATACCGATTTAC
* * *
57640691 AACTCGTGAGAATCATACCGATTTAT
1 AGCTCGTGAG-AGCATACCGATTTAC
* *
57640717 AGCTCGAGAGAGCATACCGATTCAC
1 AGCTCGTGAGAGCATACCGATTTAC
57640742 AGCTCGT-ATGAGCATAC
1 AGCTCGTGA-GAGCATAC
57640759 ATGTACATAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
24 1 0.01
25 56 0.71
26 22 0.28
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTTAC
Found at i:57655525 original size:26 final size:26
Alignment explanation
Indices: 57655489--57655543 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
57655479 AAATACGCTC
*
57655489 TCTCTTTGCTCTCATATTCTCTTTGT
1 TCTCTTTGCTCTCACATTCTCTTTGT
*
57655515 TCTCTTTGCTCTCCCATTCTCTTTGT
1 TCTCTTTGCTCTCACATTCTCTTTGT
57655541 TCT
1 TCT
57655544 TTATTCTCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.05, C:0.31, G:0.07, T:0.56
Consensus pattern (26 bp):
TCTCTTTGCTCTCACATTCTCTTTGT
Found at i:57656624 original size:23 final size:24
Alignment explanation
Indices: 57656592--57656641 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
57656582 AAATTATATT
*
57656592 TAATTATTTTCTAA-ATTT-TTTCA
1 TAATTATTTT-TAACATTTCTTTAA
*
57656615 TAATTTTTTTTAACATTTCTTTAA
1 TAATTATTTTTAACATTTCTTTAA
57656639 TAA
1 TAA
57656642 AATGGATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 13 0.57
24 7 0.30
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATTATTTTTAACATTTCTTTAA
Found at i:57656734 original size:16 final size:17
Alignment explanation
Indices: 57656715--57656747 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57656705 CTAGATTGAA
57656715 TTTAAAAAAT-AATATT
1 TTTAAAAAATAAATATT
*
57656731 TTTAAAATATAAATATT
1 TTTAAAAAATAAATATT
57656748 ATAATAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAAAAAATAAATATT
Found at i:57658351 original size:8 final size:7
Alignment explanation
Indices: 57658330--57658415 Score: 53
Period size: 6 Copynumber: 12.9 Consensus size: 7
57658320 GTGTTTATCT
57658330 ATATATAA
1 ATAT-TAA
57658338 ATATTAA
1 ATATTAA
57658345 ATCATT-A
1 AT-ATTAA
*
57658352 CTA-TAA
1 ATATTAA
**
57658358 ATAAAATA
1 ATATTA-A
57658366 ATATT-A
1 ATATTAA
57658372 ATATT-A
1 ATATTAA
57658378 ATATT-A
1 ATATTAA
57658384 ATATT-A
1 ATATTAA
57658390 ATATT-A
1 ATATTAA
57658396 ATATT-A
1 ATATTAA
57658402 ATATTAA
1 ATATTAA
57658409 ATCATTA
1 AT-ATTA
57658416 TTATAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 1 0.01
6 40 0.60
7 11 0.16
8 15 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATTAA
Found at i:57658375 original size:6 final size:6
Alignment explanation
Indices: 57658364--57658408 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
57658354 ATAAATAAAA
57658364 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAA
57658409 ATCATTATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATAT
Found at i:57661465 original size:13 final size:13
Alignment explanation
Indices: 57661447--57661472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57661437 TCGGTCGATT
57661447 AAAGAAGAATAAA
1 AAAGAAGAATAAA
57661460 AAAGAAGAATAAA
1 AAAGAAGAATAAA
57661473 TGAAGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAGAAGAATAAA
Found at i:57662669 original size:52 final size:52
Alignment explanation
Indices: 57662591--57662694 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
57662581 GGCCTCTATA
*
57662591 TATTATGTAAAATTTGGCTATACATGGGTTAAGGGTAAATTGCATAAATTTG
1 TATTATGTAAAATTTGGCTATACATGGGCTAAGGGTAAATTGCATAAATTTG
57662643 TATTATGTAAAATTTGGCTATACATGGGCTAAGGGTAAATTGCATAAATTTG
1 TATTATGTAAAATTTGGCTATACATGGGCTAAGGGTAAATTGCATAAATTTG
57662695 CCATTTTGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.38
Consensus pattern (52 bp):
TATTATGTAAAATTTGGCTATACATGGGCTAAGGGTAAATTGCATAAATTTG
Found at i:57663218 original size:22 final size:21
Alignment explanation
Indices: 57663123--57663235 Score: 82
Period size: 23 Copynumber: 5.0 Consensus size: 21
57663113 GGACTCACCA
57663123 CAGCTCATATGAGCTTACTGATT
1 CAGCTCATA-GAGCTTACTG-TT
* * *
57663146 CAACTCGTAAGAGCTTACTATTT
1 CAGCTCAT-AGAGCTTACT-GTT
* * * *
57663169 TAGCTCATTGGAGCTTCCCGATT
1 CAGCTCA-TAGAGCTTACTG-TT
57663192 CAGCTCGATAGAGCTTACTGTT
1 CAGCTC-ATAGAGCTTACTGTT
*
57663214 CAGCTCAACAGAGCTTACTGTT
1 CAGCTC-ATAGAGCTTACTGTT
57663236 TATTAGCTCA
Statistics
Matches: 69, Mismatches: 16, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
22 22 0.32
23 44 0.64
24 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
CAGCTCATAGAGCTTACTGTT
Found at i:57679638 original size:23 final size:23
Alignment explanation
Indices: 57679612--57679662 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
57679602 GACTCACCAC
*
57679612 AGCTTGTATGAGCTTACTGA-TTT
1 AGCTCGTATGAGCTTACT-ATTTT
57679635 AGCTCGTATGAGCTTACTATTTT
1 AGCTCGTATGAGCTTACTATTTT
57679658 AGCTC
1 AGCTC
57679663 ATTGGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACTATTTT
Found at i:57679694 original size:46 final size:45
Alignment explanation
Indices: 57679621--57679719 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 45
57679611 CAGCTTGTAT
* * * *
57679621 GAGCTTACTGATTTAGCTCGTATGAGCTTACTATTTTAGCTCATTG
1 GAGCTTACTGATTCAACTCGTATGAGCTTACT-GTTTAGCTCAATG
*
57679667 GAGCTTATTGATTCAACTCG-ATAGAGCTTACTGTTTAGCTCAATG
1 GAGCTTACTGATTCAACTCGTAT-GAGCTTACTGTTTAGCTCAATG
57679712 GAGCTTAC
1 GAGCTTAC
57679720 CGTTTTCAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 20 0.43
46 26 0.57
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (45 bp):
GAGCTTACTGATTCAACTCGTATGAGCTTACTGTTTAGCTCAATG
Found at i:57679737 original size:46 final size:45
Alignment explanation
Indices: 57679644--57679749 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 45
57679634 TAGCTCGTAT
* * ** *
57679644 GAGCTTACTATTTTAGCTCATTGGAGCTTATTGATTCAACTCGATA
1 GAGCTTACT-GTTTAGCTCAATGGAGCTTACCGATTCAACTCAATA
* *
57679690 GAGCTTACTGTTTAGCTCAATGGAGCTTACCGTTTTCAGCTCAATA
1 GAGCTTACTGTTTAGCTCAATGGAGCTTACCG-ATTCAACTCAATA
*
57679736 GAGCTTATTGTTTA
1 GAGCTTACTGTTTA
57679750 TCAGCTCAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 19 0.37
46 32 0.63
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (45 bp):
GAGCTTACTGTTTAGCTCAATGGAGCTTACCGATTCAACTCAATA
Found at i:57679739 original size:24 final size:24
Alignment explanation
Indices: 57679621--57679757 Score: 106
Period size: 23 Copynumber: 5.9 Consensus size: 24
57679611 CAGCTTGTAT
* *
57679621 GAGCTTACTGATTT-AGCTC-GTA
1 GAGCTTACTGTTTTCAGCTCAATA
* * *
57679643 TGAGCTTACTATTTT-AGCTCATTG
1 -GAGCTTACTGTTTTCAGCTCAATA
* * * *
57679667 GAGCTTATTG-ATTCAACTCGATA
1 GAGCTTACTGTTTTCAGCTCAATA
*
57679690 GAGCTTACTG-TTT-AGCTCAATG
1 GAGCTTACTGTTTTCAGCTCAATA
*
57679712 GAGCTTACCGTTTTCAGCTCAATA
1 GAGCTTACTGTTTTCAGCTCAATA
*
57679736 GAGCTTATTGTTTATCAGCTCA
1 GAGCTTACTGTTT-TCAGCTCA
57679758 GGAGGAGCCT
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
22 17 0.19
23 44 0.49
24 20 0.22
25 8 0.09
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCAATA
Found at i:57698172 original size:20 final size:20
Alignment explanation
Indices: 57698134--57698170 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57698124 AGGGAAGAAG
*
57698134 AAAAGAAAAATGAAGAAATA
1 AAAAGAAAAATGAAAAAATA
57698154 AAAAGAAAAA-GAAAAAA
1 AAAAGAAAAATGAAAAAA
57698171 ATTAAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAGAAAAATGAAAAAATA
Found at i:57700306 original size:31 final size:30
Alignment explanation
Indices: 57700271--57700344 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
57700261 TTAATGGTTC
* *
57700271 AGTGACTAAAATGTTACAACATTT-TAACGTA
1 AGTGACTAAAATGTT--AACATTTCAAACATA
*
57700302 AGTGACTAAAACG-TAACATTTCAAACATA
1 AGTGACTAAAATGTTAACATTTCAAACATA
57700331 AGTGACTAAAATGT
1 AGTGACTAAAATGT
57700345 AATTTAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 7 0.19
29 17 0.46
30 1 0.03
31 12 0.32
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (30 bp):
AGTGACTAAAATGTTAACATTTCAAACATA
Found at i:57704056 original size:3 final size:3
Alignment explanation
Indices: 57704048--57704080 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
57704038 AATAAACTTT
57704048 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57704081 AAGACAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57705773 original size:16 final size:16
Alignment explanation
Indices: 57705752--57705784 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57705742 TTTTTTCATT
57705752 GACATAGAATGTATTA
1 GACATAGAATGTATTA
57705768 GACATAGAATGTATTA
1 GACATAGAATGTATTA
57705784 G
1 G
57705785 TTAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (16 bp):
GACATAGAATGTATTA
Found at i:57711012 original size:22 final size:21
Alignment explanation
Indices: 57710971--57711012 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
57710961 CACTTTTTCA
*
57710971 TTATGTTTTTTATGTTTTCTT
1 TTATGTTTTTTATGTCTTCTT
57710992 TTATAGTTTTTTCAT-TCTTCT
1 TTAT-GTTTTTT-ATGTCTTCT
57711013 GAATTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (21 bp):
TTATGTTTTTTATGTCTTCTT
Found at i:57711193 original size:22 final size:24
Alignment explanation
Indices: 57711160--57711217 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
57711150 AACATACACA
* *
57711160 TTATTATTTTTTAAGATAATTTA-AT
1 TTATT-TTTTTAAAAAT-ATTTATAT
57711185 TT-TTTTTTTAAAAATATTTATAT
1 TTATTTTTTTAAAAATATTTATAT
57711208 TTATTTTTTT
1 TTATTTTTTT
57711218 TATGTGACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 13 0.45
24 9 0.31
25 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTATTTTTTTAAAAATATTTATAT
Found at i:57712430 original size:17 final size:18
Alignment explanation
Indices: 57712410--57712444 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57712400 ATGTTTAAGT
57712410 TTAAAAATTTT-AATTAA
1 TTAAAAATTTTAAATTAA
*
57712427 TTAAAATTTTTAAATTAA
1 TTAAAAATTTTAAATTAA
57712445 AAATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAAATTTTAAATTAA
Found at i:57718165 original size:18 final size:18
Alignment explanation
Indices: 57718119--57718165 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
57718109 TGAGAATTAT
*
57718119 TATATTTAAATTTAACTA
1 TATATTTAATTTTAACTA
*
57718137 TAGATTATAATTTTAA-TA
1 TATATT-TAATTTTAACTA
57718155 GTATATTTAAT
1 -TATATTTAAT
57718166 CATACATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATATTTAATTTTAACTA
Found at i:57724872 original size:79 final size:82
Alignment explanation
Indices: 57724761--57724945 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
57724751 GCTACTCGTT
* *
57724761 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
57724824 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
57724841 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
57724904 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
57724921 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57724946 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:57724945 original size:40 final size:40
Alignment explanation
Indices: 57724742--57724945 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
57724732 CGGAATTTAA
** *
57724742 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57724782 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57724822 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57724861 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
57724901 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
57724941 CCGGA
1 CCGGA
57724946 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57727982 original size:68 final size:67
Alignment explanation
Indices: 57727868--57728029 Score: 211
Period size: 68 Copynumber: 2.4 Consensus size: 67
57727858 AAACACGTGA
* * *
57727868 AAGTTCGCCAAGACATTAAACATGGGGATTACAGGTGTAAGACCATAGCTC-AGCTATGGCA-AC
1 AAGTCCGCCAAGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCGA-CTATGG-AGAC
*
57727931 CAATT
64 C-AGT
* *
57727936 AAGTCCGCCAGGACATTAGACATGAGGATTACAGGTGTAAGACCATAACTCGACTATGGAGACCA
1 AAGTCCGCCAAGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCGACTATGGAGACCA
57728001 GT
66 GT
*
57728003 AGAGTCTGCCAAGACATTAAACATGAG
1 A-AGTCCGCCAAGACATTAAACATGAG
57728030 ACATGATGAG
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
67 4 0.05
68 77 0.94
69 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (67 bp):
AAGTCCGCCAAGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCGACTATGGAGACCA
GT
Found at i:57731276 original size:22 final size:23
Alignment explanation
Indices: 57731251--57731302 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
57731241 TATAAAACCT
57731251 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
**
57731273 AATAAAAAGTAGTCTTAAATTAA
1 AATAAAAAGTAGTCTTAAAGAAA
57731296 AATAAAA
1 AATAAAA
57731303 GGAACAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:57734076 original size:17 final size:17
Alignment explanation
Indices: 57734054--57734088 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57734044 TGTGTTATTC
57734054 GAATTAC-AGGCTTGAAG
1 GAATTACGA-GCTTGAAG
57734071 GAATTACGAGCTTGAAG
1 GAATTACGAGCTTGAAG
57734088 G
1 G
57734089 GTGATTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.23
Consensus pattern (17 bp):
GAATTACGAGCTTGAAG
Found at i:57742120 original size:47 final size:47
Alignment explanation
Indices: 57742057--57742402 Score: 509
Period size: 47 Copynumber: 7.3 Consensus size: 47
57742047 CCCTTCGGGA
* * *
57742057 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
57742104 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
57742151 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* **
57742198 CTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
57742245 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
57742292 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
57742339 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
57742388 CCTATCACATATATA
1 CTTATCACATATATA
57742403 TACTTGTACA
Statistics
Matches: 283, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 241 0.85
49 40 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:57742253 original size:22 final size:22
Alignment explanation
Indices: 57742085--57742206 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 22
57742075 TTCCACATCC
57742085 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
57742107 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
57742131 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
*** * *
57742154 ATCACATATATACATGTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
57742178 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57742201 ATCACA
1 ATCACA
57742207 CATACGCATG
Statistics
Matches: 70, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 27 0.39
23 11 0.16
24 11 0.16
25 21 0.30
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57747599 original size:24 final size:23
Alignment explanation
Indices: 57747572--57747676 Score: 69
Period size: 24 Copynumber: 4.6 Consensus size: 23
57747562 GAGTCATGGT
57747572 CAGTAAGCTCCT-TTGAGCTAAAAA
1 CAGTAAGCTCCTATTGAGCT--AAA
* *
57747596 CAGTAAACT-CTATTGAGCTGAA
1 CAGTAAGCTCCTATTGAGCTAAA
*
57747618 CAGTAAGCT-CT-TTCGAGATAAA
1 CAGTAAGCTCCTATT-GAGCTAAA
* *
57747640 TC-GATAAGCTTC-AATGAGCTGAAA
1 -CAG-TAAGCTCCTATTGAGCT-AAA
57747664 CAGTAAGCTCCTA
1 CAGTAAGCTCCTA
57747677 CAAACTGTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
21 2 0.03
22 19 0.30
23 21 0.33
24 22 0.34
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCCTATTGAGCTAAA
Found at i:57778426 original size:20 final size:20
Alignment explanation
Indices: 57778403--57778440 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57778393 ATGTATATGT
*
57778403 ATATATAAATATAAATATCA
1 ATATATAAAGATAAATATCA
57778423 ATATATAAAGATAAATAT
1 ATATATAAAGATAAATAT
57778441 TATATAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATATAAAGATAAATATCA
Found at i:57782943 original size:24 final size:24
Alignment explanation
Indices: 57782902--57783016 Score: 116
Period size: 23 Copynumber: 4.9 Consensus size: 24
57782892 TAAGCTCCTC
*
57782902 TGAGCTGATAAACAGTAAGGTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
*
57782927 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
*
57782951 TTAGCT--AAACAGTAAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
* *
57782972 TCGAGCTG-AATCAGTAAGCT-TCAA
1 T-GAGCTGAAAACAGTAAGCTCT-AT
57782996 TGAGCTG-AAACAGTAAGCTCT
1 TGAGCTGAAAACAGTAAGCTCT
57783017 TACAAGCTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
21 2 0.03
22 18 0.23
23 28 0.36
24 21 0.27
25 8 0.10
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:57783024 original size:23 final size:23
Alignment explanation
Indices: 57782953--57783025 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
57782943 AGCTCTATTT
* *
57782953 AGCT-AAACAGTAAGCTCTTTCG
1 AGCTGAAACAGTAAGCTCTTACA
* *
57782975 AGCTGAATCAGTAAGCT-TCA-A
1 AGCTGAAACAGTAAGCTCTTACA
57782996 TGAGCTGAAACAGTAAGCTCTTACA
1 --AGCTGAAACAGTAAGCTCTTACA
57783021 AGCTG
1 AGCTG
57783026 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.12
23 32 0.80
24 2 0.05
25 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCTCTTACA
Found at i:57792856 original size:96 final size:95
Alignment explanation
Indices: 57792706--57793044 Score: 385
Period size: 96 Copynumber: 3.5 Consensus size: 95
57792696 GACCATGGCG
* * * ***
57792706 ATATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCCTCGATATGTGTCAGTGTAAG
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTTTATGTGTCAGTGTAAG
*
57792771 ACCATGTCTAGGACATGGCATCGGCACCGGT
66 ACCATGTCTGGGACATGGCATCGGCACC-GT
* * * * * *
57792802 ATATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGTATCGACATTTTTATGTGAGCCAGAGTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTTTATGT--GTCAGTGTA
* *
57792867 AGACCATGCCTGGGACATGGCATCGGC-CTC-A
64 AGACCATGTCTGGGACATGGCATCGGCAC-CGT
** * *
57792898 ATATTCGAGCTAGCGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTGTATGTGTCAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT-TT-TATGTGTCAGTGTA
*
57792963 AGACCATGTCTGGGACATGGCATCGACACCGAT
64 AGACCATGTCTGGGACATGGCATCGGCACCG-T
* ** *
57792996 GTATGAGAGCCAGTGTAAGACCATGTCCGGAACATGGCATCAGCATTTT
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTT
57793045 ACCCTTTTTT
Statistics
Matches: 203, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
96 120 0.59
97 6 0.03
98 77 0.38
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (95 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTTTATGTGTCAGTGTAAG
ACCATGTCTGGGACATGGCATCGGCACCGT
Found at i:57792885 original size:48 final size:48
Alignment explanation
Indices: 57792707--57793044 Score: 186
Period size: 48 Copynumber: 7.0 Consensus size: 48
57792697 ACCATGGCGA
* * * * * * ***
57792707 TATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCCTCGA
1 TATGTGAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGACATTTT
* * *** *
57792755 TATGT--GTCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCACCGGTA
1 TATGTGAGCCAGAGTAAGACCATGTCT-GGAACATGGCATC-G-ACATTTT
* * * * *
57792803 TATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGTATCGACATTTT
1 TATGTGAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGACATTTT
* * * * ***
57792851 TATGTGAGCCAGAGTAAGACCATGCCTGGGACATGGCATCGGCCTCAA
1 TATGTGAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGACATTTT
* * * *
57792899 TAT-TCGAGCTAGCGTAAGACCATGTTTGGAACATGGCATCGGCATTGTT
1 TATGT-GAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGACATT-TT
* * * ** *
57792948 GTATGT--GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATG
1 -TATGTGAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGACA--TTTT
* * *
57792997 TATGAGAGCCAGTGTAAGACCATGTCCGGAACATGGCATC-AGCATTTT
1 TATGTGAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGA-CATTTT
57793045 ACCCTTTTTT
Statistics
Matches: 222, Mismatches: 53, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
46 28 0.13
47 4 0.02
48 123 0.55
49 5 0.02
50 61 0.27
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
TATGTGAGCCAGAGTAAGACCATGTCTGGAACATGGCATCGACATTTT
Found at i:57793843 original size:15 final size:15
Alignment explanation
Indices: 57793823--57793852 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57793813 CTAGTTTCAA
57793823 ATGCTTTTTACATAT
1 ATGCTTTTTACATAT
57793838 ATGCTTTTTACATAT
1 ATGCTTTTTACATAT
57793853 TTTATAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ATGCTTTTTACATAT
Found at i:57804718 original size:29 final size:27
Alignment explanation
Indices: 57804700--57804769 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
57804690 ATATTAAGTC
57804700 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
57804727 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
57804755 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57804770 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:57804763 original size:28 final size:28
Alignment explanation
Indices: 57804700--57804797 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
57804690 ATATTAAGTC
*
57804700 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
57804727 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57804755 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57804784 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57804798 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57815584 original size:42 final size:42
Alignment explanation
Indices: 57815465--57815595 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
57815455 CACATAGTGC
* * * * * *
57815465 CATACCAATGCCATATCCCAAATATAGTCTTACATGTAATCT
1 CATACCGATACCATATCCCAGATATGGTCTTACACGAAATCT
* ** * *
57815507 CATACCGATGCCAATAGACCAGCTATGGTCTTACACGAAATTT
1 CATACCGATACC-ATATCCCAGATATGGTCTTACACGAAATCT
* * *
57815550 CATATCGATACCATATCCCAGATATGGTTTTACACAAAATCT
1 CATACCGATACCATATCCCAGATATGGTCTTACACGAAATCT
57815592 CATA
1 CATA
57815596 ATGATGTCAT
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 39 0.55
43 32 0.45
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (42 bp):
CATACCGATACCATATCCCAGATATGGTCTTACACGAAATCT
Found at i:57815607 original size:42 final size:42
Alignment explanation
Indices: 57815475--57815627 Score: 119
Period size: 42 Copynumber: 3.6 Consensus size: 42
57815465 CATACCAATG
* * *** * *
57815475 CCATATCCCAAATATAGTCTTACATGTAATCTCATACCGATG
1 CCATATCCCAGATATGGTCTTACACAAAATCTCATATCGATA
** * * *
57815517 CCAATAGACCAGCTATGGTCTTACACGAAATTTCATATCGATA
1 CC-ATATCCCAGATATGGTCTTACACAAAATCTCATATCGATA
* *
57815560 CCATATCCCAGATATGGTTTTACACAAAATCTCATAAT-GATG
1 CCATATCCCAGATATGGTCTTACACAAAATCTCAT-ATCGATA
* ** *
57815602 TCATATTTCACATATGGTCTTACACA
1 CCATATCCCAGATATGGTCTTACACA
57815628 TAACCTCGGT
Statistics
Matches: 87, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 53 0.61
43 34 0.39
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACAAAATCTCATATCGATA
Found at i:57815855 original size:19 final size:19
Alignment explanation
Indices: 57815815--57815857 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57815805 CACTTTTTAC
* * *
57815815 AATTTAGTCCTTTTTGCTA
1 AATTTAGTCATTTTTACAA
57815834 AATTTAGTCATTTTTACAA
1 AATTTAGTCATTTTTACAA
57815853 AATTT
1 AATTT
57815858 TCACAAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (19 bp):
AATTTAGTCATTTTTACAA
Found at i:57820369 original size:13 final size:13
Alignment explanation
Indices: 57820329--57820370 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
57820319 AACAATTAAA
*
57820329 TCACATTAATATT
1 TCACATTAAAATT
* *
57820342 ACACATTAAATTT
1 TCACATTAAAATT
57820355 TCACATTAAAATT
1 TCACATTAAAATT
57820368 TCA
1 TCA
57820371 ATTTTCACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (13 bp):
TCACATTAAAATT
Found at i:57822229 original size:40 final size:40
Alignment explanation
Indices: 57822185--57822265 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
57822175 CAACTGGTTC
57822185 TTTAGTGGGAGATAAAATAATTGCCAATGGATGGTTTTGA
1 TTTAGTGGGAGATAAAATAATTGCCAATGGATGGTTTTGA
57822225 TTTAGTGGGAGATAAAATAATTGCCAATGGATGGTTTTGA
1 TTTAGTGGGAGATAAAATAATTGCCAATGGATGGTTTTGA
57822265 T
1 T
57822266 ATGGTTGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (40 bp):
TTTAGTGGGAGATAAAATAATTGCCAATGGATGGTTTTGA
Found at i:57823170 original size:19 final size:19
Alignment explanation
Indices: 57823146--57823184 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
57823136 GAGTTAACAT
57823146 AACCTTTTCATGTATTTGG
1 AACCTTTTCATGTATTTGG
*
57823165 AACCTTTTCATGTTTTTGG
1 AACCTTTTCATGTATTTGG
57823184 A
1 A
57823185 GGGTCATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (19 bp):
AACCTTTTCATGTATTTGG
Found at i:57830523 original size:13 final size:12
Alignment explanation
Indices: 57830500--57830562 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
57830490 AATAATTTTA
57830500 TATTAAAATTAT
1 TATTAAAATTAT
57830512 TATT-AAA-TAT
1 TATTAAAATTAT
57830522 TATTAATAATTA-
1 TATTAA-AATTAT
*
57830534 TATTAAGAA-TGT
1 TATTAA-AATTAT
57830546 TATT-AAATTAT
1 TATTAAAATTAT
57830557 ATATTA
1 -TATTA
57830563 TTTTATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:57830527 original size:22 final size:23
Alignment explanation
Indices: 57830500--57830562 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
57830490 AATAATTTTA
57830500 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
57830522 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
57830546 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
57830563 TTTTATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:57830569 original size:34 final size:33
Alignment explanation
Indices: 57830492--57830569 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
57830482 TTCTTAATAA
57830492 TAATTTTATATTAAAATTATTATTAAATATTAT
1 TAATTTTATATTAAAATTATTATTAAATATTAT
* *
57830525 TAATAATTATATTAAGAA-TGTTATTAAATTATATAT
1 TAAT-TTTATATTAA-AATTATTATTAAA-TAT-TAT
57830561 T-ATTTTATA
1 TAATTTTATA
57830570 AAATTGTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
33 4 0.11
34 23 0.61
35 7 0.18
36 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (33 bp):
TAATTTTATATTAAAATTATTATTAAATATTAT
Found at i:57830641 original size:61 final size:58
Alignment explanation
Indices: 57830525--57830658 Score: 139
Period size: 61 Copynumber: 2.3 Consensus size: 58
57830515 TAAATATTAT
* * *
57830525 TAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATAAAATTGTATTTAA
1 TAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATAAAATTATATTTAA
* *
57830583 TAATAATTATGTTAA-AATATGATTAAATTATTTATTTTTATTTTTATTAAAA-TATATTTAA
1 TAATAATTATATTAAGAATATGATTAAATTA--TA-TATTA-TTTTA-TAAAATTATATTTAA
*
57830644 CAATAATCT-TATTAA
1 TAATAAT-TATATTAA
57830659 AATTTAATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
57 13 0.21
58 14 0.22
59 2 0.03
60 4 0.06
61 24 0.38
62 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (58 bp):
TAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATAAAATTATATTTAA
Found at i:57830675 original size:25 final size:26
Alignment explanation
Indices: 57830626--57830676 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
57830616 ATTTTTATTT
*
57830626 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
57830652 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
57830677 ATCTACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:57830844 original size:16 final size:16
Alignment explanation
Indices: 57830823--57830876 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
57830813 TGAATTACTG
* *
57830823 ATTACAGCGCTATTCC
1 ATTACAGCTCTATTCA
*
57830839 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCA
*
57830855 ATTACATCTCTATTCA
1 ATTACAGCTCTATTCA
57830871 ATTACA
1 ATTACA
57830877 ACCTTATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:57830868 original size:32 final size:32
Alignment explanation
Indices: 57830823--57830893 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
57830813 TGAATTACTG
* *
57830823 ATTACAGCGCTATTCCATTAC-AGCTCTATTCT
1 ATTACAGCGCTATTCAATTACAACCT-TATTCT
* *
57830855 ATTACATCTCTATTCAATTACAACCTTATTCT
1 ATTACAGCGCTATTCAATTACAACCTTATTCT
57830887 ATTACAG
1 ATTACAG
57830894 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 30 0.91
33 3 0.09
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (32 bp):
ATTACAGCGCTATTCAATTACAACCTTATTCT
Found at i:57830949 original size:21 final size:21
Alignment explanation
Indices: 57830923--57830990 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
57830913 TGTCTAAGTA
57830923 TATTTATTTTTAAAATAATAC
1 TATTTATTTTTAAAATAATAC
* * *
57830944 TATTTACTATATCAAAT-ATA-
1 TATTTA-TTTTTAAAATAATAC
*
57830964 TAGTTATTTTTAAAATAATAC
1 TATTTATTTTTAAAATAATAC
57830985 TATTTA
1 TATTTA
57830991 CTGTATTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 7 0.19
20 8 0.22
21 14 0.39
22 7 0.19
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (21 bp):
TATTTATTTTTAAAATAATAC
Found at i:57830976 original size:41 final size:41
Alignment explanation
Indices: 57830921--57831006 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
57830911 AATGTCTAAG
*
57830921 TATATTTATTTTTAAAATAATACTATTTACTATATCAAATA
1 TATAGTTATTTTTAAAATAATACTATTTACTATATCAAATA
* *
57830962 TATAGTTATTTTTAAAATAATACTATTTACTGTATTAAATA
1 TATAGTTATTTTTAAAATAATACTATTTACTATATCAAATA
57831003 TATA
1 TATA
57831007 AAGAGTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (41 bp):
TATAGTTATTTTTAAAATAATACTATTTACTATATCAAATA
Found at i:57831001 original size:22 final size:21
Alignment explanation
Indices: 57830935--57831002 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
57830925 TTTATTTTTA
*
57830935 AAATAATACTATTTACTATATC
1 AAATAATACTATTTACT-TATT
* *
57830957 AAAT-ATA-TAGTTA-TTTTT
1 AAATAATACTATTTACTTATT
57830975 AAAATAATACTATTTACTGTATT
1 -AAATAATACTATTTACT-TATT
57830998 AAATA
1 AAATA
57831003 TATAAAGAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
18 2 0.06
19 5 0.14
20 8 0.22
21 8 0.22
22 10 0.28
23 3 0.08
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (21 bp):
AAATAATACTATTTACTTATT
Found at i:57831133 original size:51 final size:51
Alignment explanation
Indices: 57831068--57831173 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
57831058 GTGACTAGCA
* *
57831068 AAAAAAAAATTCAAAATTTGAAACGATTTGTAGGCATTTCAGATTAATAAG
1 AAAAAAAAACTCAAAATGTGAAACGATTTGTAGGCATTTCAGATTAATAAG
57831119 AAAAAAAAACTCAAAATGTGAAACGATTTGTAGGCATTTCAGATTAATAAG
1 AAAAAAAAACTCAAAATGTGAAACGATTTGTAGGCATTTCAGATTAATAAG
57831170 AAAA
1 AAAA
57831174 GGAGCTCCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.26
Consensus pattern (51 bp):
AAAAAAAAACTCAAAATGTGAAACGATTTGTAGGCATTTCAGATTAATAAG
Found at i:57832868 original size:30 final size:30
Alignment explanation
Indices: 57832832--57832892 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57832822 ATTTTATTGT
* *
57832832 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTACTATTTTAAAGACATTTGC
* *
57832862 TAATTTTGTTACTATTTTAGAGTCATTTGC
1 TAATTTTGTTACTATTTTAAAGACATTTGC
57832892 T
1 T
57832893 TGTTAAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTACTATTTTAAAGACATTTGC
Found at i:57833044 original size:12 final size:12
Alignment explanation
Indices: 57833009--57833046 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
57832999 GTTTATATAT
*
57833009 ATATTAAAATT-
1 ATATAAAAATTA
57833020 ATATAAAAA-TA
1 ATATAAAAATTA
57833031 ATATAAAAATTA
1 ATATAAAAATTA
57833043 ATAT
1 ATAT
57833047 GGGCAGGCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:57834697 original size:15 final size:15
Alignment explanation
Indices: 57834677--57834705 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57834667 CAAAATTTAA
57834677 ATTTTGTTGAGGAAT
1 ATTTTGTTGAGGAAT
57834692 ATTTTGTTGAGGAA
1 ATTTTGTTGAGGAA
57834706 CCTTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (15 bp):
ATTTTGTTGAGGAAT
Found at i:57834741 original size:19 final size:19
Alignment explanation
Indices: 57834717--57834753 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
57834707 CTTAAAATTC
57834717 AAAATTTT-AATTTTGATTA
1 AAAATTTTGAA-TTTGATTA
57834736 AAAATTTTGAATTTGATT
1 AAAATTTTGAATTTGATT
57834754 GAGGCATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
AAAATTTTGAATTTGATTA
Found at i:57835148 original size:22 final size:22
Alignment explanation
Indices: 57835121--57835163 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
57835111 ATATTTTTAT
57835121 TTTACTAAAAATAATTTAATTG
1 TTTACTAAAAATAATTTAATTG
57835143 TTTACTAAAAATAATTTAATT
1 TTTACTAAAAATAATTTAATT
57835164 TAAACAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTACTAAAAATAATTTAATTG
Found at i:57835362 original size:19 final size:18
Alignment explanation
Indices: 57835338--57835373 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
57835328 CCTAACTTTT
57835338 GTGATTCGATTTCGATTTG
1 GTGATTCGATTTC-ATTTG
*
57835357 GTGATTGGATTTCATTT
1 GTGATTCGATTTCATTT
57835374 TTTGTTTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (18 bp):
GTGATTCGATTTCATTTG
Found at i:57838406 original size:68 final size:68
Alignment explanation
Indices: 57838290--57838440 Score: 189
Period size: 68 Copynumber: 2.2 Consensus size: 68
57838280 GGAAGTCCGT
* * * * *
57838290 TAGGACATTAAA-ATTTGGGATTATAGGTATAAGACCATAGCTCAACTATGACATCCAATAGAG-
1 TAGGACATTAAACA-TAGGGATTACAAGTATAAGACCATAACTCAACTATGACAACCAATAGAGT
57838353 TCTGC
65 TC-GC
* * *
57838358 TAGGACATTAAACATAGGGATTACAAGTGTAAGACCATAACTCCACTATGGCAACCAATAGAGTT
1 TAGGACATTAAACATAGGGATTACAAGTATAAGACCATAACTCAACTATGACAACCAATAGAGTT
57838423 CGC
66 CGC
*
57838426 TAGAACATTAAACAT
1 TAGGACATTAAACAT
57838441 GGGGTATGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
68 69 0.96
69 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (68 bp):
TAGGACATTAAACATAGGGATTACAAGTATAAGACCATAACTCAACTATGACAACCAATAGAGTT
CGC
Found at i:57844332 original size:46 final size:46
Alignment explanation
Indices: 57844280--57844507 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
57844270 AGTGTGCTCT
57844280 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57844326 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
57844372 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
57844418 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
57844464 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
57844508 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:57849126 original size:67 final size:67
Alignment explanation
Indices: 57848924--57849115 Score: 224
Period size: 67 Copynumber: 2.9 Consensus size: 67
57848914 CTGCTGGGAT
* * * * ** * * *
57848924 AGTAAACACAAGGTATGCTGTGTAAGATCATGGCTTGGCTATGGTGACATAAACAGTTTGTCAGG
1 AGTAAACACAGGGTATGATGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTCTGTCAGG
57848989 AC
66 AC
* * * * * *
57848991 AATAAACACAGGGTATGTTGTCTAAGACCATAGCTCGACTAT-AACAACATAGAGAGTCTGTCAG
1 AGTAAACACAGGGTATGATGTGTAAGACCATAGCTTGGCTATGGA-AACATAGAGAGTCTGTCAG
57849055 GAC
65 GAC
*
57849058 AGTAAACATAGGGTATGATGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTC
1 AGTAAACACAGGGTATGATGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTC
57849116 CATCAAGACA
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
67 101 0.99
68 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (67 bp):
AGTAAACACAGGGTATGATGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTCTGTCAGG
AC
Found at i:57851979 original size:138 final size:138
Alignment explanation
Indices: 57851731--57851989 Score: 491
Period size: 138 Copynumber: 1.9 Consensus size: 138
57851721 ACGGGTAAAG
*
57851731 TTCTATTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
1 TTCTACTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
57851796 CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATATAACACATCG
66 CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATATAACACATCG
57851861 GAATATAA
131 GAATATAA
*
57851869 TTCTACTCAAATGGAGGAATACTCGAGATGAAAGGAATGTATTGGTAAGTGTTGTGAAATGGATA
1 TTCTACTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
*
57851934 CTTTGAACAAGTATGTACTTAACCCTCGGGTTGAAAACTCAATATAACAACAATAT
66 CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATAT
57851990 GGTAAGATGA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (138 bp):
TTCTACTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATATAACACATCG
GAATATAA
Found at i:57857005 original size:20 final size:19
Alignment explanation
Indices: 57856980--57857027 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
57856970 CTTTTTTAGA
**
57856980 TTTTAATTTAATCCCTTTAT
1 TTTTAATTTAAT-AATTTAT
57857000 TTTTAAATTTAATAATTTAT
1 TTTT-AATTTAATAATTTAT
57857020 TTTTAATT
1 TTTTAATT
57857028 GGTCAACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTAATAATTTAT
Found at i:57857559 original size:31 final size:30
Alignment explanation
Indices: 57857524--57857594 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
57857514 AGCTTTTTTT
*
57857524 TTTCTTTTTGTTTCGTATAATTTTGTAAGTA
1 TTTCTTTTTGTTTCGCA-AATTTTGTAAGTA
* *
57857555 TTTCTTTTCTTTTTCGCAATTTTTGTAAGTA
1 TTTCTTTT-TGTTTCGCAAATTTTGTAAGTA
57857586 TATT-TTTTT
1 T-TTCTTTTT
57857595 CTTTTTGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 25 0.71
32 9 0.26
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (30 bp):
TTTCTTTTTGTTTCGCAAATTTTGTAAGTA
Found at i:57862795 original size:20 final size:20
Alignment explanation
Indices: 57862758--57862796 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57862748 TTCCCTAATA
*
57862758 CAGAGCCACACGAGCGTGTC
1 CAGAGCCACACGACCGTGTC
*
57862778 CAGAGCCACACGTCCGTGT
1 CAGAGCCACACGACCGTGT
57862797 AAGACAGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.36, G:0.28, T:0.13
Consensus pattern (20 bp):
CAGAGCCACACGACCGTGTC
Found at i:57864385 original size:44 final size:44
Alignment explanation
Indices: 57864320--57864403 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
57864310 CATGTATTGA
*
57864320 ATCCATAATGAACTCAAACCAACTCAACGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCAAACCAACTCAACAAGCTCGGATGCTCGC
** *
57864364 ATCCATAATGAACTCGGACCAACTCAACAAGCTTGGATGC
1 ATCCATAATGAACTCAAACCAACTCAACAAGCTCGGATGC
57864404 CTTATACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.19
Consensus pattern (44 bp):
ATCCATAATGAACTCAAACCAACTCAACAAGCTCGGATGCTCGC
Found at i:57872794 original size:44 final size:44
Alignment explanation
Indices: 57872727--57872814 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
57872717 AGTACATGTA
* *
57872727 TCGCATCCATAATGAACTGGGACCAACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
57872771 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
57872815 CTCATACATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
Found at i:57883575 original size:48 final size:48
Alignment explanation
Indices: 57883512--57883609 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
57883502 TATCACGTAC
*
57883512 TTAAACCATTAGGCTTTCATATGGCATTTCACACCAATTTCATATCTA
1 TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
*
57883560 TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTTATATCTA
1 TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
57883608 TT
1 TT
57883610 CATCGTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (48 bp):
TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
Found at i:57886881 original size:76 final size:75
Alignment explanation
Indices: 57886594--57886896 Score: 345
Period size: 76 Copynumber: 4.0 Consensus size: 75
57886584 TAATGTTTTG
* * * * * ** * *
57886594 CGCCCAATGCTAGTTGGATAAATCGACGATATCAAATGTGTGGCCAGCAATAGTTGGATAAATCG
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGT-GCCAGCACTAGTTGGATGTACCA
* *
57886659 ATAATGAGTTG
65 ACAATGAGTTA
* * * * * *
57886670 TGCCCAGCGCTAGTTGGGTAAACCAATGATATCAAATGTGTGCCAAGCATTAGTTGGATGTACCA
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTGCC-AGCACTAGTTGGATGTACCA
57886735 ACAATGAGTTA
65 ACAATGAGTTA
* * * *
57886746 CGCCCAACACTAGTCGGGTCAATCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTATCA
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTG-CCAGCACTAGTTGGATGTACCA
*
57886811 ACATTGAGTTA
65 ACAATGAGTTA
* * *
57886822 CGCCCAACGCTAGACGTGTAAACCGACGATATCAAATGTATGCCTAGCACTAGTTGGATGTACCA
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTGCC-AGCACTAGTTGGATGTACCA
57886887 ACAATGAGTT
65 ACAATGAGTT
57886897 GCACCTAGCA
Statistics
Matches: 191, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
75 5 0.03
76 184 0.96
77 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (75 bp):
CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTGCCAGCACTAGTTGGATGTACCAA
CAATGAGTTA
Found at i:57886922 original size:152 final size:152
Alignment explanation
Indices: 57886610--57886924 Score: 405
Period size: 152 Copynumber: 2.1 Consensus size: 152
57886600 ATGCTAGTTG
* * * **
57886610 GATAAATCGACGATATCAAATGTGTGGCCAGCAATAGTTGGATAAATCGATAATGAGTTGTGCCC
1 GATAAATCGACGATATCAAATGTGTGCCCAGCAATAGTTGGATAAATCAACAATGAGTTACGCCC
* ** * * *
57886675 AGCGCTAGTTGGGTAAACCAATGATATCAAATGTGTGCCAAGCATTAGTTGGATGTACCAACAAT
66 AACGCTAGACGGGTAAACCAACGATATCAAATGTATGCCAAGCACTAGTTGGATGTACCAACAAT
* *
57886740 GAGTTACGCCCAACACTAGTCG
131 GAGTTACACCCAACACTAGTCA
* * * ** *
57886762 GGTCAATCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTATCAACATTGAGTTACGCCC
1 GATAAATCGACGATATCAAATGTGTGCCCAGCAATAGTTGGATAAATCAACAATGAGTTACGCCC
* * *
57886827 AACGCTAGACGTGTAAACCGACGATATCAAATGTATGCCTAGCACTAGTTGGATGTACCAACAAT
66 AACGCTAGACGGGTAAACCAACGATATCAAATGTATGCCAAGCACTAGTTGGATGTACCAACAAT
* * *
57886892 GAGTTGCACCTAGCACTAGTCA
131 GAGTTACACCCAACACTAGTCA
57886914 GATAAATCGAC
1 GATAAATCGAC
57886925 AAATACATAC
Statistics
Matches: 136, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
152 136 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (152 bp):
GATAAATCGACGATATCAAATGTGTGCCCAGCAATAGTTGGATAAATCAACAATGAGTTACGCCC
AACGCTAGACGGGTAAACCAACGATATCAAATGTATGCCAAGCACTAGTTGGATGTACCAACAAT
GAGTTACACCCAACACTAGTCA
Found at i:57888225 original size:21 final size:22
Alignment explanation
Indices: 57888196--57888236 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57888186 AACTCACTTA
*
57888196 AACTTAAATAATC-ATTCAATT
1 AACTAAAATAATCAATTCAATT
*
57888217 AACTAAAATTATCAATTCAA
1 AACTAAAATAATCAATTCAA
57888237 ATTTTACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (22 bp):
AACTAAAATAATCAATTCAATT
Found at i:57893208 original size:76 final size:74
Alignment explanation
Indices: 57893083--57893313 Score: 308
Period size: 76 Copynumber: 3.1 Consensus size: 74
57893073 AAAGTGTTTT
57893083 ATGAAAAAGTTGTTTGTATTGTATTTTTTGTTCATTTTACATCAATAAGATACTTATTTACAATT
1 ATGAAAAAGTTGTTTG-ATTGTATTTTTTGTTCATTTTACATCAATAAGATACTTATTTACAATT
57893148 TATGAAAAAA
65 TATGAAAAAA
57893158 ATGAAAAAGTTGTTTGCATTGTACTTTTTTGTTCATTTTACATCAATAAGATACTTATTTACAAT
1 ATGAAAAAGTTGTTTG-ATTGTA-TTTTTTGTTCATTTTACATCAATAAGATACTTATTTACAAT
57893223 TTATGAAAAAA
64 TTATGAAAAAA
* * * * * ** * *
57893234 ATGAAAAAATTG-TTG-GTATATTGTATTG-T-ATTTTTACATCAACAATTTACTTATTTATAGT
1 ATGAAAAAGTTGTTTGATTGTATT-TTTTGTTCA-TTTTACATCAATAAGATACTTATTTACAAT
57893295 TTATGAAAAAA
64 TTATGAAAAAA
57893306 ATGAAAAA
1 ATGAAAAA
57893314 ATCGCTTATA
Statistics
Matches: 143, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
71 1 0.01
72 47 0.33
73 7 0.05
75 25 0.17
76 63 0.44
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (74 bp):
ATGAAAAAGTTGTTTGATTGTATTTTTTGTTCATTTTACATCAATAAGATACTTATTTACAATTT
ATGAAAAAA
Found at i:57893310 original size:72 final size:70
Alignment explanation
Indices: 57893117--57893355 Score: 247
Period size: 76 Copynumber: 3.4 Consensus size: 70
57893107 TTTTTGTTCA
* *
57893117 TTTTACATCAATAAGATACTTATTTACAATTTATGAAAAAAATGAAAAAGTTGTTTGCATTGTAC
1 TTTTACATCAATAAGATACTTATTTACAATTTATGAAAAAAATGAAAAAATTG-TTG---TATA-
*
57893182 TTTTTTGT-T
61 TTTATTGTAT
57893191 CATTTTACATCAATAAGATACTTATTTACAATTTATGAAAAAAATGAAAAAATTGTTGGTATATT
1 --TTTTACATCAATAAGATACTTATTTACAATTTATGAAAAAAATGAAAAAATTGTT-GTATATT
57893256 GTATTGTAT
63 -TATTGTAT
* ** * * * *
57893265 TTTTACATCAACAATTTACTTATTTATAGTTTATGAAAAAAATGAAAAAATCGCT-TATA-TTA-
1 TTTTACATCAATAAGATACTTATTTACAATTTATGAAAAAAATGAAAAAATTGTTGTATATTTAT
57893327 --TAT
66 TGTAT
* *
57893330 TTTTACATTAATAATATACTTATTTA
1 TTTTACATCAATAAGATACTTATTTA
57893356 TAGTTTACCC
Statistics
Matches: 147, Mismatches: 13, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
65 26 0.18
68 2 0.01
69 1 0.01
70 4 0.03
72 50 0.34
73 8 0.05
74 1 0.01
75 2 0.01
76 53 0.36
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (70 bp):
TTTTACATCAATAAGATACTTATTTACAATTTATGAAAAAAATGAAAAAATTGTTGTATATTTAT
TGTAT
Found at i:57893370 original size:65 final size:65
Alignment explanation
Indices: 57893257--57893380 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 65
57893247 TGGTATATTG
* * **
57893257 TATTGTATTTTTACATCAACAATTTACTTATTTATAGTTTATGAAAAAAAT-GAAAAAATCGCTT
1 TATTATATTTTTACATCAACAATATACTTATTTATAGTTTA-CCAAAAAATGGAAAAAATCGCTT
57893321 A
65 A
* * *
57893322 TATTATATTTTTACATTAATAATATACTTATTTATAGTTTACCCAAAAATGGAAAAAAT
1 TATTATATTTTTACATCAACAATATACTTATTTATAGTTTACCAAAAAATGGAAAAAAT
57893381 TAATAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 6 0.12
65 45 0.88
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (65 bp):
TATTATATTTTTACATCAACAATATACTTATTTATAGTTTACCAAAAAATGGAAAAAATCGCTTA
Found at i:57895252 original size:39 final size:39
Alignment explanation
Indices: 57895203--57895475 Score: 270
Period size: 39 Copynumber: 7.0 Consensus size: 39
57895193 CAAATCCAAT
* *
57895203 CACCACCACAAAGCATGCGGGACTTTAAGCCC-GATATAA
1 CACCAGCACAAAGCCTGCGGGACTTT-AGCCCGGATATAA
*
57895242 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
* * *
57895281 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATGA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
* * * *
57895320 CACCAGCACGAATGCCTTCGGGAC-TTAGCCTGGATATTA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
* * *
57895359 CACCAGCACGAATGCCTTCGGGAC-TCAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
* ** *
57895398 CACCAGCACGAATGCCTTTGGGAC-TTAGCTCGGATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
* **
57895437 CACCAGCACGAATGCCTTTGGGA-TTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
57895476 TTCTCCATTA
Statistics
Matches: 215, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
38 5 0.02
39 198 0.92
40 12 0.06
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
Found at i:57895348 original size:78 final size:78
Alignment explanation
Indices: 57895220--57895475 Score: 372
Period size: 78 Copynumber: 3.3 Consensus size: 78
57895210 ACAAAGCATG
* * *
57895220 CGGGACTTTAAGCCC-GATATAATACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACA
57895283 CCAGCACGAATGCCTT
63 CCAGCACGAATGCCTT
* * *
57895299 CGGGACTTAGCCCGGATATGACACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATTACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
57895364 GCACGAATGCCTT
66 GCACGAATGCCTT
* * *
57895377 CGGGACTCAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAGCTCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
57895442 GCACGAATGCCTT
66 GCACGAATGCCTT
* *
57895455 TGGGATTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
57895476 TTCTCCATTA
Statistics
Matches: 160, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
77 5 0.03
78 137 0.86
79 18 0.11
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTT
Found at i:57895409 original size:117 final size:117
Alignment explanation
Indices: 57895220--57895473 Score: 368
Period size: 117 Copynumber: 2.2 Consensus size: 117
57895210 ACAAAGCATG
* * *
57895220 CGGGACTTTAAGCCC-GATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
1 CGGGAC-TT-AGCCCGGATATTACACCAGCACAAAGCCTGCGGGACTTCAGCCCGGATATAACAC
*
57895284 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATGACACCAGCACGAATGCCTT
64 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
57895338 CGGGACTTAGCCTGGATATTACACCAGCACGAATGCCTTCGGGAC-TCAGCCCGGATATAACACC
1 CGGGACTTAGCCCGGATATTACACCAGCAC-AAAGCCTGCGGGACTTCAGCCCGGATATAACACC
* *
57895402 AGCACGAATGCCTTTGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
65 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
57895455 TGGGATTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
57895474 AATTCTCCAT
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
116 4 0.03
117 100 0.82
118 18 0.15
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATTACACCAGCACAAAGCCTGCGGGACTTCAGCCCGGATATAACACCA
GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:57906422 original size:39 final size:39
Alignment explanation
Indices: 57906366--57906675 Score: 476
Period size: 39 Copynumber: 7.9 Consensus size: 39
57906356 TTATATTATT
* * *
57906366 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
57906405 AGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
57906444 AGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* * * *
57906483 AGCACAAAGCCTGTGGGACTTTGGCCCGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
57906522 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
** * * *
57906561 AGCACGAAGCCTGCGGGACTTCGGCCTGGATATATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
57906600 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
57906639 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
57906676 TCAGTGTCTT
Statistics
Matches: 246, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 246 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:57908793 original size:59 final size:59
Alignment explanation
Indices: 57908701--57908818 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
57908691 AAGCTCTATA
57908701 ATACTTTACAAGTTTATAAGTATAAAAAGTGGGATAGCCTATTGCTTTACAAAGGATTT
1 ATACTTTACAAGTTTATAAGTATAAAAAGTGGGATAGCCTATTGCTTTACAAAGGATTT
*
57908760 ATACTTTACAAGTTTATAAGTATAAAAATTGGGATAGCCTATTGCTTTACAAAGGATTT
1 ATACTTTACAAGTTTATAAGTATAAAAAGTGGGATAGCCTATTGCTTTACAAAGGATTT
57908819 GCCTTTTCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (59 bp):
ATACTTTACAAGTTTATAAGTATAAAAAGTGGGATAGCCTATTGCTTTACAAAGGATTT
Found at i:57910453 original size:43 final size:44
Alignment explanation
Indices: 57910380--57910508 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 44
57910370 TCTGGGACAT
* * ** *
57910380 GGCT-TTGGCATCGATACGTAATTACGTGTAAGACCATAG-CTG
1 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATAGTCTG
57910422 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCAT-GTCTG
1 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATAGTCTG
*
57910465 GGACATGGCATTGGCATCGTTATGTGATCCCATGTAAGACCATA
1 GG-C-T---ATTGGCATCGATATGTGATCCCATGTAAGACCATA
57910509 TATGGGATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 5 0.07
43 33 0.45
44 1 0.01
45 1 0.01
48 33 0.45
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (44 bp):
GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATAGTCTG
Found at i:57910490 original size:48 final size:48
Alignment explanation
Indices: 57910345--57910530 Score: 195
Period size: 48 Copynumber: 4.0 Consensus size: 48
57910335 CATTAGGGTT
* * *
57910345 ATATGCGATCCCATGCAAGACCATGTCTGGGACATGGCTTTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * ** *
57910393 ATACGTAATTACGTGTAAGACCATAG-CTGGG-C-T---ATTGGCATCG
1 ATATGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCG
57910436 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * * *
57910484 TTATGTGATCCCATGTAAGACCATATATGGGATATGGAATTTGCATC
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
57910531 CTACCATATG
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.29
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 73 0.65
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:57915724 original size:158 final size:158
Alignment explanation
Indices: 57915436--57915751 Score: 587
Period size: 158 Copynumber: 2.0 Consensus size: 158
57915426 AACAAAAATT
*
57915436 TTGAATAATTTTCATTAACTATAATTAAACCTTGCATGCTTCATTTTCGAAAACAAAAATTTTAA
1 TTGAATAATTTTCATTAACTATAAGTAAACCTTGCATGCTTCATTTTCGAAAACAAAAATTTTAA
* * *
57915501 AATGTGGCTGCATTTCCAAGCCCTATGTGCATTCGCCCAAACTTAAAGTTTGTATTGTCCCCAAT
66 AATGTGGCTGCATTTCCAAGCCCCATGTGCATTCCCCCAAACTTAAAGTTTGCATTGTCCCCAAT
57915566 GCACTAACATGAAAATATAATGACAATA
131 GCACTAACATGAAAATATAATGACAATA
57915594 TTGAATAATTTTCATTAACTATAAGTAAACCTTGCATGCTTCATTTTCGAAAACAAAAATTTTAA
1 TTGAATAATTTTCATTAACTATAAGTAAACCTTGCATGCTTCATTTTCGAAAACAAAAATTTTAA
*
57915659 AATGTGGGTGCATTTCCAAGCCCCATGTGCATTCCCCCAAACTTAAAGTTTGCATTGTCCCCAAT
66 AATGTGGCTGCATTTCCAAGCCCCATGTGCATTCCCCCAAACTTAAAGTTTGCATTGTCCCCAAT
57915724 GCACTAACATGAAAATATAATGACAATA
131 GCACTAACATGAAAATATAATGACAATA
57915752 AAAAAGAAAT
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 153 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (158 bp):
TTGAATAATTTTCATTAACTATAAGTAAACCTTGCATGCTTCATTTTCGAAAACAAAAATTTTAA
AATGTGGCTGCATTTCCAAGCCCCATGTGCATTCCCCCAAACTTAAAGTTTGCATTGTCCCCAAT
GCACTAACATGAAAATATAATGACAATA
Done.